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Cotranscriptional folding of influenza virus RNA in MDCK cells in presence of antisense oligonucleotides. A new method for next-generation sequencing based chemical mapping of RNA structure.

2017/25/B/NZ1/02269

Keywords

Descriptors

  • NZ1_2: Biochemia
  • NZ1_4: Biologia strukturalna
  • NZ1_1: Biologia molekularna

Panel

NZ1 – Molecular biology, structural biology, biotechnology: molecular biology, structural biology, biotechnology

Host institution

Instytut Chemii Bioorganicznej PAN

Voivodeship: wielkopolskie

Other projects carried out by the institution »

Principal investigator (from the host institution)

prof. Ryszard Kierzek

Number of co-investigators in the project: 5

Call

OPUS 13 – announced on 2017-03-15

Amount awarded
2 068 520 PLN
Project start date
2018-01-30
Project end date
2022-01-29
Project duration
48 months (the same as in the proposal)
Project status
Project settled

Project description

Download the project description in a pdf file

Note — project descriptions were prepared by the authors of the applications themselves and placed in the system in an unchanged form.

Equipment purchased [PL]

  1. Aparat Real-Time PCR.
  2. Aparat do elektroforezy poliakrylamidowej. Cost: 16 000 PLN
  3. Aspirator próżniowy. Cost: 12 000 PLN
  4. Inkubator z dwutlenkiem węgla. Cost: 35 000 PLN
  5. Komora laminarna II klasa bezpieczeństwa. Cost: 45 000 PLN
  6. Oprogramowanie do komputera.
  7. Pompa olejowa wysokiej próżni. Cost: 10 000 PLN
  8. Spektrofotometr UV/VIS z termoprogramatorem i kuwetami kwarcowymi. Cost: 142 000 PLN
  9. Wysokiej sprawności komputer, monitor i drukarka laserowa. Cost: 12 000 PLN
  10. Zasilacz wysokonapięciowy. Cost: 9 000 PLN

Information in the final report

Publication in academic press/journals (9)

  1. RNA Secondary Structure as a First Step for Rational Design of the Oligonucleotides towards Inhibition of Influenza A Virus Replication.

    Authors:
    M. Szabat, D. Lorent, T. Czapik, M. Tomaszewska, E. Kierzek, R. Kierzek
    Academic press:
    Pathogenes (year: 2020, volume: 9, pages: 925), Publisher: MDPI
    Status:
    Published
    DOI:
    10.3390/pathogens9110925 – link to the publication

  2. Universal and strain specific structure features of segment 8 genomic RNA of influenza A virus - application of 4-thiouridine photocrosslinking

    Authors:
    M. Soszynska-Jozwiak, M. Pszczola, J. Piasecka, J.M. Peterson, W.N. Moss, K. Taras-Goslinska, R. Kierzek, E. Kierzek
    Academic press:
    Journal of Biological Chemistry (year: 2021, volume: 297, pages: 101245), Publisher: ASBMB
    Status:
    Published
    DOI:
    10.1016/j.jbc.2021.101245 – link to the publication

  3. Secondary Structure of Influenza A Virus Genomic Segment 8 RNA Folded in a Cellular Environment

    Authors:
    B. Szutkowska, K. Wieczorek, R. Kierzek, P. Zmora, J. M. Peterson, W. N. Moss, D. H. Mathews, E. Kierzek
    Academic press:
    International Journal of Molecular Sciences (year: 2022, volume: 23, pages: 2452), Publisher: MDPI
    Status:
    Published
    DOI:
    10.3390/ijms23052452 – link to the publication

  4. The regulation properties of RNA secondary structure in alternative splicing

    Authors:
    N. Bartys, R. Kierzek, J. Lisowiec-Wachnicka
    Academic press:
    Biochimica et biophysica acta. Gene regulatory mechanisms (year: 2019, volume: 1862, pages: 194401), Publisher: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.bbagrm.2019.07.002 – link to the publication

  5. Computational and NMR studies of RNA duplexes with an internal pseudouridine-adenosine base pair

    Authors:
    I. Deb, L. Popenda, J. Sarzynska, M. Malgowska, A. Lahiri, Z. Gdaniec, R. Kierzek
    Academic press:
    Scientific Reports (year: 2019, volume: 9, pages: 16278), Publisher: Nature Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41598-019-52637-0 – link to the publication

  6. Thermodynamic and structural contributions of the 6-thioguanosine residue to helical properties of RNA

    Authors:
    M. Gladysz, W. Andralojc, T. Czapik, Z. Gdaniec, R. Kierzek
    Academic press:
    Scientific Reports (year: 2019, volume: 9, pages: 4385), Publisher: Nature Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41598-019-40715-2 – link to the publication

  7. Secondary structure of the segment 5 genomic RNA of influenza A virus and its application for designing antisense oligonucleotides

    Authors:
    P. Michalak, M. Soszynska-Jozwiak, E. Biala, W.N. Moss, J. Kesy, B. Szutkowska, E. Lenartowicz, R. Kierzek, E. Kierzek
    Academic press:
    Scientific Reports (year: 2019, volume: 9, pages: 3801), Publisher: Nuture Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41598-019-40443-7 – link to the publication

  8. Conserved Structural Motifs of Two Distant IAV Subtypes in Genomic Segment 5 RNA

    Authors:
    P. Michalak, J. Piasecka, B. Szutkowska, R. Kierzek, E. Biala, W.N. Moss, E. Kierzek
    Academic press:
    VIRUSES-BASEL (year: 2021, volume: 13, pages: 2000-2016), Publisher: MDPI
    Status:
    Published
    DOI:
    10.3390/v13030525 – link to the publication

  9. RNA Secondary Structure Motifs of the Influenza A Virus as Targets for siRNA-Mediated RNA Interference.

    Authors:
    J. Piasecka, E. Lenartowicz, M. Soszynska-Jozwiak, B. Szutkowska, R. Kierzek, E. Kierzek
    Academic press:
    Molecular Therapy-Nucleic Acids (year: 2020, volume: 19, pages: 627-642), Publisher: Cell Press
    Status:
    Published
    DOI:
    10.1016/j.omtn.2019.12.018 – link to the publication

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